{"id":"https://openalex.org/W7135025202","doi":"https://doi.org/10.1186/s13326-025-00342-5","title":"Advancing the bioassay ontology through integrated PK/PD and safety pharmacology representation","display_name":"Advancing the bioassay ontology through integrated PK/PD and safety pharmacology representation","publication_year":2026,"publication_date":"2026-03-12","ids":{"openalex":"https://openalex.org/W7135025202","doi":"https://doi.org/10.1186/s13326-025-00342-5","pmid":"https://pubmed.ncbi.nlm.nih.gov/41821121"},"language":"en","primary_location":{"id":"doi:10.1186/s13326-025-00342-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-025-00342-5","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13326-025-00342-5.pdf","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://link.springer.com/content/pdf/10.1186/s13326-025-00342-5.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5128866937","display_name":"Joan Glenny-Pescov","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Joan Glenny-Pescov","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5128809829","display_name":"Caty Chung","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Caty Chung","raw_affiliation_strings":["Frost Institute for Data Science and Computing, University of Miami, Coral Gables, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Frost Institute for Data Science and Computing, University of Miami, Coral Gables, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5128839372","display_name":"Nicolette Ross","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicolette Ross","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5128911523","display_name":"Jiaming Hu","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jiaming Hu","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5128819106","display_name":"Michael Sinclair","orcid":null},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Michael Sinclair","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001591414","display_name":"Rabia Khurshid","orcid":"https://orcid.org/0009-0005-7585-7740"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Rabia Khurshid","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103252654","display_name":"Anneli Karlsson","orcid":"https://orcid.org/0000-0001-5155-4327"},"institutions":[{"id":"https://openalex.org/I87048295","display_name":"Wellcome Trust","ror":"https://ror.org/029chgv08","country_code":"GB","type":"nonprofit","lineage":["https://openalex.org/I87048295"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"Anneli Karlsson","raw_affiliation_strings":["Scibite an Elsevier Company, BioData Innovation Centre, Wellcome Genome Campus, Cambridge, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Scibite an Elsevier Company, BioData Innovation Centre, Wellcome Genome Campus, Cambridge, UK","institution_ids":["https://openalex.org/I87048295"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013636406","display_name":"Stephan C. Sch\u00fcrer","orcid":"https://orcid.org/0000-0001-7180-0978"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]},{"id":"https://openalex.org/I4210157065","display_name":"Sylvester Comprehensive Cancer Center","ror":"https://ror.org/0552r4b12","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I145608581","https://openalex.org/I4210101935","https://openalex.org/I4210157065"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Stephan C. Sch\u00fcrer","raw_affiliation_strings":["Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA. sschurer@miami.edu","Frost Institute for Data Science and Computing, University of Miami, Coral Gables, USA. sschurer@miami.edu","Sylvester Comprehensive Cancer Center, University of Miami Miller School of Medicine, Miami, USA. sschurer@miami.edu"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Cellular and Molecular Pharmacology, University of Miami Miller School of Medicine, Miami, USA. sschurer@miami.edu","institution_ids":["https://openalex.org/I145608581"]},{"raw_affiliation_string":"Frost Institute for Data Science and Computing, University of Miami, Coral Gables, USA. sschurer@miami.edu","institution_ids":["https://openalex.org/I145608581"]},{"raw_affiliation_string":"Sylvester Comprehensive Cancer Center, University of Miami Miller School of Medicine, Miami, USA. sschurer@miami.edu","institution_ids":["https://openalex.org/I4210157065"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5128866937"],"corresponding_institution_ids":["https://openalex.org/I145608581"],"apc_list":{"value":1190,"currency":"GBP","value_usd":1459},"apc_paid":{"value":1190,"currency":"GBP","value_usd":1459},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.4789195,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"17","issue":"1","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9761999845504761,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11710","display_name":"Biomedical Text Mining and Ontologies","score":0.9761999845504761,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10215","display_name":"Semantic Web and Ontologies","score":0.012299999594688416,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.0017999999690800905,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/ontology","display_name":"Ontology","score":0.6435999870300293},{"id":"https://openalex.org/keywords/categorization","display_name":"Categorization","score":0.5135999917984009},{"id":"https://openalex.org/keywords/axiom","display_name":"Axiom","score":0.4973999857902527},{"id":"https://openalex.org/keywords/class","display_name":"Class (philosophy)","score":0.4284000098705292},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.427700012922287},{"id":"https://openalex.org/keywords/knowledge-representation-and-reasoning","display_name":"Knowledge representation and reasoning","score":0.36039999127388}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.79339998960495},{"id":"https://openalex.org/C25810664","wikidata":"https://www.wikidata.org/wiki/Q44325","display_name":"Ontology","level":2,"score":0.6435999870300293},{"id":"https://openalex.org/C94124525","wikidata":"https://www.wikidata.org/wiki/Q912550","display_name":"Categorization","level":2,"score":0.5135999917984009},{"id":"https://openalex.org/C167729594","wikidata":"https://www.wikidata.org/wiki/Q17736","display_name":"Axiom","level":2,"score":0.4973999857902527},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.44769999384880066},{"id":"https://openalex.org/C2777212361","wikidata":"https://www.wikidata.org/wiki/Q5127848","display_name":"Class (philosophy)","level":2,"score":0.4284000098705292},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.427700012922287},{"id":"https://openalex.org/C161301231","wikidata":"https://www.wikidata.org/wiki/Q3478658","display_name":"Knowledge representation and reasoning","level":2,"score":0.36039999127388},{"id":"https://openalex.org/C184337299","wikidata":"https://www.wikidata.org/wiki/Q1437428","display_name":"Semantics (computer science)","level":2,"score":0.33009999990463257},{"id":"https://openalex.org/C102993220","wikidata":"https://www.wikidata.org/wiki/Q387196","display_name":"Description logic","level":2,"score":0.3172000050544739},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3046000003814697},{"id":"https://openalex.org/C2778180026","wikidata":"https://www.wikidata.org/wiki/Q18378163","display_name":"Semantic heterogeneity","level":4,"score":0.2930000126361847},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.28850001096725464},{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.2881999909877777},{"id":"https://openalex.org/C137982476","wikidata":"https://www.wikidata.org/wiki/Q7072326","display_name":"Open Biomedical Ontologies","level":5,"score":0.27549999952316284},{"id":"https://openalex.org/C187191949","wikidata":"https://www.wikidata.org/wiki/Q1138496","display_name":"Profiling (computer programming)","level":2,"score":0.2750000059604645},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.25369998812675476}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1186/s13326-025-00342-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-025-00342-5","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13326-025-00342-5.pdf","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},{"id":"pmid:41821121","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41821121","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of biomedical semantics","raw_type":null},{"id":"pmh:oai:doaj.org/article:aba627af1f19413792a1fe8ab280e6e1","is_oa":true,"landing_page_url":"https://doaj.org/article/aba627af1f19413792a1fe8ab280e6e1","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Biomedical Semantics, Vol 17, Iss 1 (2026)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12983555","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12983555/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"J Biomed Semantics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s13326-025-00342-5","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s13326-025-00342-5","pdf_url":"https://link.springer.com/content/pdf/10.1186/s13326-025-00342-5.pdf","source":{"id":"https://openalex.org/S172276550","display_name":"Journal of Biomedical Semantics","issn_l":"2041-1480","issn":["2041-1480"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by-nc-nd","license_id":"https://openalex.org/licenses/cc-by-nc-nd","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Biomedical Semantics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.55987548828125,"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G3042357518","display_name":null,"funder_award_id":"R01LM013391","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G3793162500","display_name":null,"funder_award_id":"U01LM012630","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G6931046909","display_name":null,"funder_award_id":"U24HG012674","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320309370","display_name":"University of Pennsylvania","ror":"https://ror.org/00b30xv10"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7135025202.pdf","grobid_xml":"https://content.openalex.org/works/W7135025202.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W1802346448","https://openalex.org/W1935434993","https://openalex.org/W2000818167","https://openalex.org/W2010386108","https://openalex.org/W2016976521","https://openalex.org/W2049415080","https://openalex.org/W2054754827","https://openalex.org/W2062558911","https://openalex.org/W2103017472","https://openalex.org/W2103260426","https://openalex.org/W2105836514","https://openalex.org/W2120534674","https://openalex.org/W2130956106","https://openalex.org/W2133614244","https://openalex.org/W2142678031","https://openalex.org/W2143742443","https://openalex.org/W2147018385","https://openalex.org/W2163841005","https://openalex.org/W2261812172","https://openalex.org/W2302501749","https://openalex.org/W2332965964","https://openalex.org/W2558999090","https://openalex.org/W2605099106","https://openalex.org/W2894652650","https://openalex.org/W2899915536","https://openalex.org/W3097145107","https://openalex.org/W3170771812","https://openalex.org/W4385765461","https://openalex.org/W4390402831","https://openalex.org/W4410372674"],"related_works":[],"abstract_inverted_index":{"The":[0,79,216],"latest":[1],"release":[2],"of":[3,38,74,105,116,149,154,189,207,257,272],"the":[4,35,49,131,146,266],"BioAssay":[5],"Ontology":[6,134],"(BAO),":[7],"version":[8],"2.8.16,":[9],"introduces":[10],"major":[11],"updates":[12],"that":[13,239],"expand":[14],"its":[15,248,262,273],"ability":[16,249],"to":[17,23,107,129,142,163,250,277],"describe":[18],"and":[19,26,71,76,94,110,119,136,173,183,211,228,255,264,269,287,293],"categorize":[20],"assays":[21,231,238],"related":[22],"pharmacokinetics,":[24],"pharmacodynamics,":[25],"safety":[27],"pharmacology.":[28],"These":[29,176],"refinements,":[30],"driven":[31],"by":[32,48],"collaboration":[33],"with":[34,122,145],"Semantic":[36],"Enrichment":[37],"Electronic":[39],"Laboratory":[40],"Notebook":[41],"Data":[42],"project,":[43],"an":[44],"industry":[45],"initiative":[46],"led":[47],"Pistoia":[50],"Alliance,":[51],"address":[52],"previously":[53],"identified":[54],"gaps":[55],"in":[56,198,290],"ontology":[57,217],"coverage.":[58],"New":[59],"terms":[60,106,126],"were":[61,127,140,157],"added":[62,158],"for":[63,283],"disease":[64],"models,":[65],"preclinical":[66],"study":[67],"parameters,":[68],"toxicological":[69],"measurements,":[70],"detailed":[72],"classifications":[73],"pharmacokinetics":[75],"pharmacodynamics":[77],"assays.":[78,215],"update":[80],"also":[81],"incorporates":[82],"biologically":[83],"relevant":[84],"target":[85],"classes,":[86,114],"including":[87],"cytochrome":[88],"P450":[89],"enzymes,":[90],"solute":[91],"carrier":[92],"transporters,":[93],"uridine":[95],"diphosphate-glucuronosyltransferase":[96],"enzymes.":[97],"Beyond":[98],"content":[99],"expansion,":[100],"structural":[101],"improvements":[102],"include":[103],"reassignment":[104],"more":[108],"specific":[109],"semantically":[111],"appropriate":[112],"parent":[113],"refinement":[115],"class":[117,202],"dependencies,":[118],"enhanced":[120],"alignment":[121],"external":[123],"ontologies.":[124],"Anatomical":[125],"reorganized":[128],"follow":[130],"Uber":[132],"Anatomy":[133],"hierarchy,":[135],"new":[137],"chemical":[138],"classes":[139],"incorporated":[141],"improve":[143,178],"compatibility":[144],"Chemical":[147],"Entities":[148],"Biological":[150],"Interest":[151],"Ontology.":[152],"Hundreds":[153],"additional":[155],"axioms":[156,203],"using":[159],"existing":[160],"object":[161],"properties":[162],"capture":[164],"assay":[165,258],"formats,":[166],"endpoints,":[167],"detection":[168],"methods,":[169],"substrates,":[170],"design":[171],"strategies,":[172],"biological":[174],"context.":[175],"refinements":[177],"BAO\u2019s":[179,200],"semantic":[180,270],"precision,":[181],"interoperability,":[182],"reasoning":[184],"capabilities.":[185],"As":[186],"a":[187,194,280],"demonstration":[188],"these":[190],"capabilities,":[191],"we":[192],"present":[193],"reasoning-based":[195],"use":[196],"case":[197],"which":[199],"equivalent":[201],"enable":[204],"automated":[205],"classification":[206],"passive":[208],"cell":[209],"permeability":[210,230],"active":[212],"efflux":[213],"substrate":[214],"infers":[218],"broader":[219],"mechanistic":[220,234],"categories":[221],"from":[222],"shared":[223],"modeled":[224],"characteristics,":[225],"grouping":[226],"transporter-specific":[227],"cell-based":[229],"under":[232],"their":[233],"parents,":[235],"while":[236],"excluding":[237],"do":[240],"not":[241],"meet":[242],"all":[243],"restrictions.":[244],"This":[245],"example":[246],"demonstrates":[247],"support":[251],"precise,":[252],"inference-driven":[253],"retrieval":[254],"integration":[256],"classes.":[259],"By":[260],"extending":[261],"scope":[263],"improving":[265],"clarity,":[267],"consistency,":[268],"depth":[271],"classifications,":[274],"BAO":[275],"continues":[276],"serve":[278],"as":[279],"vital":[281],"resource":[282],"organizing":[284],"pharmacological":[285],"data":[286],"advancing":[288],"research":[289],"both":[291],"academic":[292],"industrial":[294],"settings.":[295]},"counts_by_year":[],"updated_date":"2026-05-06T08:25:59.206177","created_date":"2026-03-13T00:00:00"}